Research workbench
Structure of beta-fructofuranosidase from schwanniomyces occidentalis complexed with sucrose
Analyse Structure of beta-fructofuranosidase from schwanniomyces occidentalis complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6S1T
- Type
- protein
- Length
- 1,024 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fructofuranosidase
- EC
- 3.2.1.26
- UniProt
- E5D0X5
- Ligands
- NAG, GLC, FRU, BMA, ZN
- Pockets
- 7 · best druggability 0.88
Structure
x-ray diffraction · 1 distinct chain · 4% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Fructofuranosidase (EC 3.2.1.26) | protein | 512 | 4% helix, 50% strand | E5D0X5 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 13 copies · chains A, B
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A, B
- FRU · beta-D-fructofuranose · sugar · 2 copies · chains A, B
- BMA · beta-D-mannopyranose · sugar · chains A
- ZN · Zinc ion · metal · chains A, B
- EDO · 1,2-ethanediol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1023 | 0.88 | 0.90 | 142 | GLC, FRU |
| 2 | 265 | 0.60 | 0.79 | 29 | EDO |
| 3 | 258 | 0.57 | 0.78 | 32 | EDO |
| 4 | 292 | 0.54 | 0.75 | 43 | empty |
| 5 | 91 | 0.34 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 2123 Ų buried · 36 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 glycan (N-glycosylation).
Compared structures
- 6S1T · Structure of beta-fructofuranosidase from Schwanniomyces occidentalis complexed with… · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt E5D0X5
- Elsewhere: RCSB PDB 6S1T · PDBe 6S1T · UniProt E5D0X5
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